Scientific Reports Biology Table of Contents e-alert: November 2013

01 November 2013      • Visit Scientific Reports • Submit your manuscript to Scientific Reports     Welcome to your Table of Contents e-alert for Scientific Reports         Choose Scientific Reports for fast, efficient, open access publishing  94% of authors said they are likely or very likely to recommend Scientific Reports to their colleagues* 91% of authors would publish in Scientific Reports again*   SUBMIT your paper today!    *Nature Publishing Group author survey, data correct as of September 2013           Biological Sciences               TRPA1 detects environmental chemicals and induces avoidance behavior and arousal from sleep ▶     Toru Yonemitsu, Chiharu Kuroki, Nobuaki Takahashi et al.     Detecting threats and escaping before serious confrontations are important for animals to avoid danger and death. Transient receptor potential ankyrin 1 (TRPA1), a member of the …             Requirement for phosphorylation of P53 at Ser312 in suppression of chemical carcinogenesis ▶     Elizabeth A. Slee, Xin Lu     The p53 tumour suppressor is activated in response to a wide variety of genotoxic stresses, frequently via post-translational modification. Using a knock in mouse model with a …             Optical control of neuronal excitation and inhibition using a single opsin protein, ChR2 ▶     Holly Liske, Xiang Qian, Polina Anikeeva et al.     The effect of electrical stimulation on neuronal membrane potential is frequency dependent. Low frequency electrical stimulation can evoke action potentials, whereas high …             Flow Through Randomly Curved Manifolds ▶     M. Mendoza, S. Succi, H. J. Herrmann     We present a computational study of the transport properties of campylotic (intrinsically curved) media. It is found that the relation between the flow through a campylotic media, …             Ratcheted diffusion transport through crowded nanochannels ▶     Anna Lappala, Alessio Zaccone, Eugene M. Terentjev     The problem of transport through nanochannels is one of the major questions in cell biology, with a wide range of applications. In this paper we discuss the process of spontaneous …             Maternal depressive symptoms related to Epstein-Barr virus reactivation in late pregnancy ▶     Peng Zhu, Yu-Jiang Chen, Jia-Hu Hao et al.     We examined the relationship between maternal depressive symptoms in late pregnancy and Epstein-Barr virus reactivation before delivery. In this prospective observational study, …             Assessment of Genetically Modified Soybean in Relation to Natural Variation in the Soybean Seed Metabolome ▶     Joseph D. Clarke, Danny C. Alexander, Dennis P. Ward et al.     Genetically modified (GM) crops currently constitute a significant and growing part of agriculture. An important aspect of GM crop adoption is to demonstrate safety and …             Cytokinesis-required Cdc14 is a signaling hub of asexual development and multi-stress tolerance in Beauveria bassiana ▶     Jie Wang, Jing Liu, Yue Hu et al.     A dual-specificity, paralogue-free Cdc14 phosphatase was located in the nuclei of Beauveria bassiana (filamentous entomopathogen) and functionally characterized. Inactivation of …             A Simple Assay for Measuring Catalase Activity: A Visual Approach ▶     Tadayuki Iwase, Akiko Tajima, Shinya Sugimoto et al.     In this study, an assay that combines the ease and simplicity of the qualitative approach for measuring catalase activity was developed. The assay reagents comprised only hydrogen …             Proteomic analysis of the SIRT6 interactome: novel links to genome maintenance and cellular stress signaling ▶     Federica Simeoni, Luisa Tasselli, Shinji Tanaka et al.     The chromatin regulatory factor SIRT6 plays pivotal roles in metabolism, tumor suppression, and aging biology. Despite the fundamental roles of SIRT6 in physiology and disease, …             CD200R signaling inhibits pro-angiogenic gene expression by macrophages and suppresses choroidal neovascularization ▶     Shintaro Horie, Scott J. Robbie, Jian Liu et al.     Macrophages are rapidly conditioned by cognate and soluble signals to acquire phenotypes that deliver specific functions during inflammation, wound healing and angiogenesis. …             The Effect of Blood Flow on Magnetic Resonance Imaging of Non Thermal Irreversible Electroporation ▶     Mohammad Hjouj, Jacob Lavee, David Last et al.     To generate an understanding of the physiological significance of MR images of Non-Thermal Irreversible Electroporation (NTIRE) we compared the following MR imaging sequences: …             Identifcation of a Novel Mutation p.I240T in the FRMD7 gene in a Family with Congenital Nystagmus ▶     Yihua Zhu, Jianfu Zhuang, Xianglian Ge et al.     Congenital Nystagmus (CN) is a genetically heterogeneous ocular disease, which causes a significant proportion of childhood visual impairment. To identify the underlying genetic …             Development and regeneration ability of the wax coverage in Nepenthes alata pitchers: a cryo-SEM approach ▶     Elena V. Gorb, Martina J. Baum, Stanislav N. Gorb     The morphogenesis of the composite epicuticular wax coverage and regeneration ability of the upper wax layer in Nepenthes alata pitchers were studied using a cryo-scanning …             GWAS meta analysis identifies TSNARE1 as a novel Schizophrenia / Bipolar susceptibility locus ▶     Patrick Sleiman, Dai Wang, Joseph Glessner et al.     We carried out a GWAS meta-analysis of combined mixed-ancestry schizophrenia, schizoaffective, and bipolar cohorts that resulted in the identification of six genome-wide …             Adaptation of novel H7N9 influenza A virus to human receptors ▶     J. C. F. M. Dortmans, J. Dekkers, I. N. Ambepitiya Wickramasinghe et al.     The emergence of the novel H7N9 influenza A virus (IAV) has caused global concerns about the ability of this virus to spread between humans. Analysis of the receptor-binding …             A real-time, non-invasive, micro-optrode technique for detecting seed viability by using oxygen influx ▶     Xia Xin, Yinglang Wan, Wenjun Wang et al.     Quantifying seed viability is required for seed bank maintenance. The classical methods for detecting seed viability are time consuming and frequently cause seed damage and …             Impact of Social Punishment on Cooperative Behavior in Complex Networks ▶     Zhen Wang, Cheng-Yi Xia, Sandro Meloni et al.     Social punishment is a mechanism by which cooperative individuals spend part of their resources to penalize defectors. In this paper, we study the evolution of cooperation in …             Identification and dynamics of polyglycine II nanocrystals in Argiope trifasciata flagelliform silk ▶     G. B. Perea, C. Riekel, G. V. Guinea et al.     Spider silks combine a significant number of desirable characteristics in one material, including large tensile strength and strain at breaking, biocompatibility, and the …             SERPINB3 is associated with longer survival in transgenic mice ▶     Gianmarco Villano, Mariagrazia Ruvoletto, Giulio Ceolotto et al.     The physiological roles of the protease inhibitor SERPINB3 (SB3) are still largely unknown. The study was addressed to assess the biological effects of this serpin in vivo using a …             The significance of microscopic mass spectrometry with high resolution in the visualisation of drug distribution ▶     Masahiro Yasunaga, Masaru Furuta, Koretsugu Ogata et al.     The visualisation and quantitative analysis of the native drug distribution in a pre-clinical or clinical setting are desirable for evaluating drug effects and optimising drug …             Tiling array study of MNNG treated Escherichia coli reveals a widespread transcriptional response ▶     James A. Booth, Gard O. S. Thomassen, Alexander D. Rowe et al.     The alkylating agent N-methyl-N'-nitro-N-nitrosoguanidine (MNNG) is known to trigger the adaptive response by inducing the ada-regulon – consisting of three DNA repair enzymes …             Global variation in elevational diversity patterns ▶     Qinfeng Guo, Douglas A. Kelt, Zhongyu Sun et al.     While horizontal gradients of biodiversity have been examined extensively in the past, vertical diversity gradients (elevation, water depth) are attracting increasing attention. …             Metabolic and protein interaction sub-networks controlling the proliferation rate of cancer cells and their impact on patient survival ▶     Amir Feizi, Sergio Bordel     Cancer cells can have a broad scope of proliferation rates. Here we aim to identify the molecular mechanisms that allow some cancer cell lines to grow up to 4 times faster than …             Codon optimisation improves the expression of Trichoderma viride sp. endochitinase in Pichia pastoris ▶     Ping Yu, Yuan Yan, Qing Gu et al.     The mature cDNA of endochitinase from Trichoderma viride sp. was optimised based on the codon bias of Pichia pastoris GS115 and synthesised by successive PCR; the sequence was …             JAK1 truncating mutations in gynecologic cancer define new role of cancer-associated protein tyrosine kinase aberrations ▶     Yuan Ren, Yonghong Zhang, Richard Z. Liu et al.     Cancer-associated protein tyrosine kinase (PTK) mutations usually are gain-of-function (GOF) mutations that drive tumor growth and metastasis. We have found 50 JAK1 truncating …             Cellular network entropy as the energy potential in Waddington's differentiation landscape ▶     Christopher R. S. Banerji, Diego Miranda-Saavedra, Simone Severini et al.     Differentiation is a key cellular process in normal tissue development that is significantly altered in cancer. Although molecular signatures characterising pluripotency and …             Ultrabright and Multicolorful Fluorescence of Amphiphilic Polyethyleneimine Polymer Dots for Efficiently Combined Imaging and Therapy ▶     Yun Sun, Weipeng Cao, Shengliang Li et al.     Multifunctional nanoparticles as theranostic tools hold great potential for its unique and efficient way to visualize the process of disease treatment. However, the toxicity of …             A major QTL controlling deep rooting on rice chromosome 4 ▶     Yusaku Uga, Eiji Yamamoto, Noriko Kanno et al.     Drought is the most serious abiotic stress that hinders rice production under rainfed conditions. Breeding for deep rooting is a promising strategy to improve the root system …             Isolation and characterization of a novel wheat cysteine-rich receptor-like kinase gene induced by Rhizoctonia cerealis ▶     Kun Yang, Wei Rong, Lin Qi et al.     Cysteine-rich receptor kinases (CRKs) belong to the receptor-like kinase family. Little is known about CRK genes in wheat. We isolated a wheat CRK gene TaCRK1 from Rhizoctonia …             Allosteric coupling of the inner activation gate to the outer pore of a potassium channel ▶     Christian J. Peters, David Fedida, Eric A. Accili     In potassium channels, functional coupling of the inner and outer pore gates may result from energetic interactions between residues and conformational rearrangements that occur …             Linking genotype to phenotype on beads: high throughput selection of peptides with biological function ▶     Li-Chieh Huang, Xiaoyan Pan, Hongbing Yang et al.     Although peptides are well recognised biological molecules in vivo, their selection from libraries is challenging because of relative low affinity whilst in linear conformation. …             Epac-Inhibitors: Facts and Artefacts ▶     Holger Rehmann     cAMP is a universal second messenger. Its signalling is mediated by protein kinase A, Epac and certain types of ion channels in mammalians. cAMP signalling is involved in many …             Sirt6 regulates postnatal growth plate differentiation and proliferation via Ihh signaling ▶     Jinying Piao, Kunikazu Tsuji, Hiroki Ochi et al.     Sirtuin 6 (Sirt6) is a mammalian homologue of NAD-dependent histone deacetylase Sir2. Although Sirt6−/− mice exhibit growth retardation, the role of Sirt6 in cartilage metabolism …             Water transport mechanism through open capillaries analyzed by direct surface modifications on biological surfaces ▶     Daisuke Ishii, Hiroko Horiguchi, Yuji Hirai et al.     Some small animals only use water transport mechanisms passively driven by surface energies. However, little is known about passive water transport mechanisms because it is …             Huggable communication medium decreases cortisol levels ▶     Hidenobu Sumioka, Aya Nakae, Ryota Kanai et al.     Interpersonal touch is a fundamental component of social interactions because it can mitigate physical and psychological distress. To reproduce the psychological and physiological …             Experimental evidence suggests the existence of evolutionary conserved global operation principles governing microbial metabolism ▶     Sergio Bordel     The search for optimization principles in microbial metabolism, such as biomass or ATP yields or growth rate optimization, has attracted substantial research efforts in the recent …             A gene responsible for prolyl-hydroxylation of moss-produced recombinant human erythropoietin ▶     Juliana Parsons, Friedrich Altmann, Manuela Graf et al.     Recombinant production of pharmaceutical proteins is crucial, not only for personalized medicine. While most biopharmaceuticals are currently produced in mammalian cell culture, …             A functionally conserved Polycomb response element from mouse HoxD complex responds to heterochromatin factors ▶     Dasari Vasanthi, A. Nagabhushan, Navneet Kaur Matharu et al.     Anterior-posterior body axis in all bilaterians is determined by the Hox gene clusters that are activated in a spatio-temporal order. This expression pattern of Hox genes is …             Hox genes are involved in vascular wall-resident multipotent stem cell differentiation into smooth muscle cells ▶     Diana Klein, Mohamed Benchellal, Veronika Kleff et al.     Human vascular wall-resident CD44 multipotent stem cells (VW-MPSCs) within the vascular adventitia are capable to differentiate into pericytes and smooth muscle cells (SMC). This …             Functional role of the flexible N-terminal extension of FKBP38 in catalysis ▶     CongBao Kang, Hong Ye, Joel Chia et al.     FKBP38 regulates apoptosis through unique interactions with multiple regulators including Bcl-2. Interestingly, the peptidylprolyl isomerase activity of FKBP38 is only detectable …             Adhesion and fusion efficiencies of human immunodeficiency virus type 1 (HIV-1) surface proteins ▶     Terrence M. Dobrowsky, S. Alireza Rabi, Rebecca Nedellec et al.     In about half of patients infected with HIV-1 subtype B, viral populations shift from utilizing the transmembrane protein CCR5 to CXCR4, as well as or instead of CCR5, during late …             CSF1R mutations in hereditary diffuse leukoencephalopathy with spheroids are loss of function ▶     Clare Pridans, Kristin A. Sauter, Kristin Baer et al.     Hereditary diffuse leukoencephalopathy with spheroids (HDLS) in humans is a rare autosomal dominant disease characterized by giant neuroaxonal swellings (spheroids) within the CNS …             Bioinspired TiO2 Nanostructure Films with Special Wettability and Adhesion for Droplets Manipulation and Patterning ▶     Yue-Kun Lai, Yu-Xin Tang, Jian-Ying Huang et al.     Patterned surfaces with special wettability and adhesion (sliding, sticky or patterned superoleophobic surface) can be found on many living creatures. They offer a versatile …             SGOL1 variant B induces abnormal mitosis and resistance to taxane in non-small cell lung cancers ▶     Shun Matsuura, Tomoaki Kahyo, Kazuya Shinmura et al.     Mitosis is the most conspicuous cell cycle phase and Shugoshin-like 1 (SGOL1) is a key protein in protecting sister chromatids from precocious separation during mitosis. We …             Cotransfection of Pax2 and Math1 promote in situ cochlear hair cell regeneration after neomycin insult ▶     Yan Chen, Huiqian Yu, Yanping Zhang et al.     The ideal strategy for hair cell regeneration is promoting residual supporting cell proliferation followed by induction of hair cell differentiation. In this study, cultured …             A high-throughput three-dimensional cell migration assay for toxicity screening with mobile device-based macroscopic image analysis ▶     David M. Timm, Jianbo Chen, David Sing et al.     There is a growing demand for in vitro assays for toxicity screening in three-dimensional (3D) environments. In this study, 3D cell culture using magnetic levitation was used to …             Single domain intrabodies against WASP inhibit TCR-induced immune responses in transgenic mice T cells ▶     Mitsuru Sato, Ryoko Sawahata, Chisato Sakuma et al.     Intrabody technology provides a novel approach to decipher the molecular mechanisms of protein function in cells. Single domains composed of only the variable regions (VH or VL) …             Structure of RNA-interacting Cyclophilin A-like protein from Piriformospora indica that provides salinity-stress tolerance in plants ▶     Dipesh Kumar Trivedi, Harshesh Bhatt, Ravi Kant Pal et al.     Soil salinity problems are widespread around the globe with increased risk of spreading over the years. The fungus Piriformospora indica, identified in Indian Thar desert, …             A subset of gastric cancers with EGFR amplification and overexpression respond to cetuximab therapy ▶     Lianhai Zhang, Jie Yang, Jie Cai et al.     A preclinical trial identified 4 of 20 (20%) gastric cancer (GC) patient-derived xenografts responded to cetuximab. Genome-wide profiling and additional investigations revealed …             Whole genome comparison of donor and cloned dogs ▶     Hak-Min Kim, Yun Sung Cho, Hyunmin Kim et al.     Cloning is a process that produces genetically identical organisms. However, the genomic degree of genetic resemblance in clones needs to be determined. In this report, the …             Designing DNA interstrand lock for locus-specific methylation detection in a nanopore ▶     Insoon Kang, Yong Wang, Corbin Reagan et al.     DNA methylation is an important epigenetic regulation of gene transcription. Locus-specific DNA methylation can be used as biomarkers in various diseases including cancer. Many …             In Silico Models for Designing and Discovering Novel Anticancer Peptides ▶     Atul Tyagi, Pallavi Kapoor, Rahul Kumar et al.     Use of therapeutic peptides in cancer therapy has been receiving considerable attention in the recent years. Present study describes the development of computational models for …             Viking and Early Middle Ages Northern Scandinavian Textiles Proven to be made with Hemp ▶     G. Skoglund, M. Nockert, B. Holst     Nowadays most plant textiles used for clothing and household are made of cotton and viscose. Before the 19th century however, plant textiles were mainly made from locally …             Distinct genetic clades of Malaysian Copera damselflies and the phylogeny of platycnemine subfamilies ▶     Phaik-Eem Lim, Ji Tan, Praphathip Eamsobhana et al.     The phylogenetic relationships of some taxa in the Platycnemidinae at the species and generic levels have been investigated. Phylogenetic trees were generated from both individual …             Genome-wide network analysis of Wnt signaling in three pediatric cancers ▶     Ju Bao, Ho-Jin Lee, Jie J. Zheng     Genomic structural alteration is common in pediatric cancers, and analysis of data generated by the Pediatric Cancer Genome Project reveals such tumor-related alterations in many …             Hypoconnectivity and Hyperfrontality in Retired American Football Players ▶     Adam Hampshire, Alex MacDonald, Adrian M. Owen     Recent research has raised concerns about the long-term neurological consequences of repetitive concussive and sub-concussive injuries in professional players of American …             No association between Epstein-Barr Virus and Mouse Mammary Tumor Virus with Breast Cancer in Mexican Women ▶     Abigail Morales-Sánchez, Tzindilú Molina-Muñoz, Juan L. E. Martínez-López et al.     Breast cancer is the most frequent malignancy affecting women worldwide. It has been suggested that infection by Epstein Barr Virus (EBV), Mouse Mammary Tumor Virus or a similar …             Using social media to quantify nature-based tourism and recreation ▶     Spencer A. Wood, Anne D. Guerry, Jessica M. Silver et al.     Scientists have traditionally studied recreation in nature by conducting surveys at entrances to major attractions such as national parks. This method is expensive and provides …             Structural basis for a class of nanomolar influenza A neuraminidase inhibitors ▶     Philip S. Kerry, Sankar Mohan, Rupert J. M. Russell et al.     The influenza virus neuraminidase (NA) is essential for the virus life cycle. The rise of resistance mutations against current antiviral therapies has increased the need for the …             Genome-wide methylated CpG island profiles of melanoma cells reveal a melanoma coregulation network ▶     Jian-Liang Li, Joseph Mazar, Cuncong Zhong et al.     Metastatic melanoma is a malignant cancer with generally poor prognosis, with no targeted chemotherapy. To identify epigenetic changes related to melanoma, we have determined …             IL-32-PAR2 axis is an innate immunity sensor providing alternative signaling for LPS-TRIF axis ▶     Masanori Nakayama, Yasuo Niki, Toshiki Kawasaki et al.     Interleukin (IL)-32 is known to exert adujvant effects on innate immune response, however, receptors and downstream signaling pathways remain to be clarified. Here we found that …             Detecting secondary structure and surface orientation of helical peptide monolayers from resonant hybridization signals ▶     Kamil Boratay Alici, Ignacio F. Gallardo     Hybridization of dominant vibrational modes with meta-surface resonance allows detection of both structural changes and surface orientations of bound helical peptides. Depending …             Magneto-electric Nanoparticles to Enable Field-controlled High-Specificity Drug Delivery to Eradicate Ovarian Cancer Cells ▶     Rakesh Guduru, Ping Liang, Carolyn Runowicz et al.     The nanotechnology capable of high-specificity targeted delivery of anti-neoplastic drugs would be a significant breakthrough in Cancer in general and Ovarian Cancer in …             Exploration of miRNA families for hypotheses generation ▶     Timothy K. K. Kamanu, Aleksandar Radovanovic, John A. C. Archer et al.     Technological improvements have resulted in increased discovery of new microRNAs (miRNAs) and refinement and enrichment of existing miRNA families. miRNA families are important …             Maintenance of pluripotency in mouse ES cells without Trp53 ▶     Masaki Shigeta, Satoshi Ohtsuka, Satomi Nishikawa-Torikai et al.     Tumor suppressor Trp53 works as a guardian of the genome in somatic cells. In mouse embryonic stem (ES) cells, it was reported that Trp53 represses pluripotency-associated …             Sporadic colon cancer murine models demonstrate the value of autoantibody detection for preclinical cancer diagnosis ▶     Rodrigo Barderas, Roi Villar-Vázquez, María Jesús Fernández-Aceñero et al.     Although autoantibody detection has been proposed for diagnosis of colorectal cancer, little is known about their initial production and development correlation with cancer …             Proteome wide reduction in AGE modification in streptozotocin induced diabetic mice by hydralazine mediated transglycation ▶     Suresh K. Kesavan, Shweta Bhat, Sandeep B. Golegaonkar et al.     The non-enzymatic reaction between glucose and protein can be chemically reversed by transglycation. Here we report the transglycation activity of hydralazine using a newly …             The density difference between tissue and neural probes is a key factor for glial scarring ▶     Gustav Lind, Cecilia Eriksson Linsmeier, Jens Schouenborg     A key to successful chronic neural interfacing is to achieve minimal glial scarring surrounding the implants, as the astrocytes and microglia may functionally insulate the …             Effects of adaptive degrees of trust on coevolution of quantum strategies on scale-free networks ▶     Qiang Li, Minyou Chen, Matjaž Perc et al.     We study the impact of adaptive degrees of trust on the evolution of cooperation in the quantum prisoner's dilemma game. In addition to the strategies, links between players are …             The boundary of the meristematic and elongation zones in roots: endoreduplication precedes rapid cell expansion ▶     Kohma Hayashi, Junko Hasegawa, Sachihiro Matsunaga     Plant roots consist of a meristematic zone of mitotic cells and an elongation zone of rapidly expanding cells, in which DNA replication often occurs without cell division, a …             Evaluation of a new high-throughput method for identifying quorum quenching bacteria ▶     Kaihao Tang, Yunhui Zhang, Min Yu et al.     Quorum sensing (QS) is a population-dependent mechanism for bacteria to synchronize social behaviors such as secretion of virulence factors. The enzymatic interruption of QS, …             CDK5 is essential for TGF-β1-induced epithelial-mesenchymal transition and breast cancer progression ▶     Qian Liang, Lili Li, Jianchao Zhang et al.     Epithelial-mesenchymal transition is a change of cellular plasticity critical for embryonic development and tumor metastasis. CDK5 is a proline-directed serine/threonine kinase …             Using Strahler's analysis to reduce up to 200-fold the run time of realistic neuron models ▶     Addolorata Marasco, Alessandro Limongiello, Michele Migliore     The cellular mechanisms underlying higher brain functions/dysfunctions are extremely difficult to investigate experimentally, and detailed neuron models have proven to be a very …             Direct confocal acquisition of fluorescence from X-gal staining on thick tissue sections ▶     Konstantin L. Levitsky, Juan José Toledo-Aral, José López-Barneo et al.     X-gal staining is a common procedure used in the histochemical monitoring of gene expression by light microscopy. However, this procedure does not permit the direct confocal …             HnRNP L and hnRNP LL antagonistically modulate PTB-mediated splicing suppression of CHRNA1 pre-mRNA ▶     Mohammad Alinoor Rahman, Akio Masuda, Kenji Ohe et al.     CHRNA1 gene, encoding the muscle nicotinic acetylcholine receptor alpha subunit, harbors an inframe exon P3A. Inclusion of exon P3A disables assembly of the acetylcholine receptor …             ERRATUM: Comprehensive identification of mutational cancer driver genes across 12 tumor types ▶     David Tamborero, Abel Gonzalez-Perez, Christian Perez-Llamas et al.                 CORRIGENDUM: A Method for accurate in vivo micro-Raman spectroscopic measurements under guidance of advanced microscopy imaging ▶     Hequn Wang, Anthony M. D. Lee, Harvey Lui et al.                 Self-organized noise resistance of oscillatory neural networks with spike timing-dependent plasticity ▶     Oleksandr V. Popovych, Serhiy Yanchuk, Peter A. Tass     Intuitively one might expect independent noise to be a powerful tool for desynchronizing a population of synchronized neurons. We here show that, intriguingly, for oscillatory …             A genome-wide analysis of annexins from parasitic organisms and their vectors ▶     Cinzia Cantacessi, Jennifer M. Seddon, Terrence L. Miller et al.     In this study, we conduct an in-depth analysis of annexin proteins from a diverse range of invertebrate taxa, including the major groups that contain the parasites and vector …             Pattern randomness aftereffect ▶     Yuki Yamada, Takahiro Kawabe, Makoto Miyazaki     Humans can easily discriminate a randomly spaced from a regularly spaced visual pattern. Here, we demonstrate that observers can adapt to pattern randomness. Following their …             Upregulated expression of FGF13/FHF2 mediates resistance to platinum drugs in cervical cancer cells ▶     Tomoko Okada, Kazuhiro Murata, Ryoma Hirose et al.     Cancer cells often develop drug resistance. In cisplatin-resistant HeLa cisR cells, fibroblast growth factor 13 (FGF13/FHF2) gene and protein expression was strongly upregulated, …             Approaching the Limit of Predictability in Human Mobility ▶     Xin Lu, Erik Wetter, Nita Bharti et al.     In this study we analyze the travel patterns of 500,000 individuals in Cote d'Ivoire using mobile phone call data records. By measuring the uncertainties of movements using …             CORRIGENDUM: Inter-α/β subunits coupling mediating pre-inactivation and augmented activation of BKCa(β2) ▶     Panpan Hou, Wenping Zeng, Geliang Gan et al.                 Serum Multivalent Cationic Pattern: Speculation on the Efficient Approach for Detection of Alzheimer's Disease ▶     Morteza Azhdarzadeh, Maryam Noroozian, Haniyeh Aghaverdi et al.     Alzheimer’s disease (AD) is increasingly becoming one of the greatest medical challenges. Due to the social and financial burden of AD, detection of AD in its early stages is a …             Live pigs produced from genome edited zygotes ▶     Simon G. Lillico, Chris Proudfoot, Daniel F. Carlson et al.     Transcription activator-like effector nuclease (TALEN) and zinc finger nuclease (ZFN) genome editing technology enables site directed engineering of the genome. Here we …             Amino acid composition of proteins reduces deleterious impact of mutations ▶     Sahand Hormoz     The evolutionary origin of amino acid occurrence frequencies in proteins (composition) is not yet fully understood. We suggest that protein composition works alongside the genetic …             Asthma treatment outcome in adults is associated with rs9910408 in TBX21 gene ▶     Anton Lopert, Matija Rijavec, Mateja Žavbi et al.     Inhaled corticosteroids (ICS) are one of the most commonly used asthma therapies and have highly variable treatment success. Polymorphisms in TBX21, a gene important for the …             The RNA-binding protein FPA regulates flg22-triggered defense responses and transcription factor activity by alternative polyadenylation ▶     Rebecca Lyons, Akira Iwase, Thomas Gänsewig et al.     RNA-binding proteins (RBPs) play an important role in plant host-microbe interactions. In this study, we show that the plant RBP known as FPA, which regulates 3′-end mRNA …             Wide-ranging barcoding aids discovery of one-third increase of species richness in presumably well-investigated moths ▶     Marko Mutanen, Lauri Kaila, Jukka Tabell     Rapid development of broad regional and international DNA barcode libraries have brought new insights into the species diversity of many areas and groups. Many new species, even …             Conformational change of Sos-derived proline-rich peptide upon binding Grb2 N-terminal SH3 domain probed by NMR ▶     Kenji Ogura, Hideyasu Okamura     Growth factor receptor-bound protein 2 (Grb2) is a small adapter protein composed of a single SH2 domain flanked by two SH3 domains. The N-terminal SH3 (nSH3) domain of Grb2 binds …             Nlgn4 knockout induces network hypo-excitability in juvenile mouse somatosensory cortex in vitro ▶     V. Delattre, D. La Mendola, J. Meystre et al.     Neuroligins (Nlgns) are postsynaptic cell adhesion molecules that form transynaptic complexes with presynaptic neurexins and regulate synapse maturation and plasticity. We studied …             The Increase of the Functional Entropy of the Human Brain with Age ▶     Y. Yao, W. L. Lu, B. Xu et al.     We use entropy to characterize intrinsic ageing properties of the human brain. Analysis of fMRI data from a large dataset of individuals, using resting state BOLD signals, …             Leaf water dynamics of Arabidopsis thaliana monitored in-vivo using terahertz time-domain spectroscopy ▶     E. Castro-Camus, M. Palomar, A. A. Covarrubias     The declining water availability for agriculture is becoming problematic for many countries. Therefore the study of plants under water restriction is acquiring extraordinary …             Soft truncation thresholding for gene set analysis of RNA-seq data: Application to a vaccine study ▶     Brooke L. Fridley, Gregory D. Jenkins, Diane E. Grill et al.     Gene set analysis (GSA) has been used for analysis of microarray data to aid the interpretation and to increase statistical power. With the advent of next-generation sequencing, …             Recombinant Human Prion Protein Inhibits Prion Propagation in vitro ▶     Jue Yuan, Yi-An Zhan, Romany Abskharon et al.     Prion diseases are associated with the conformational conversion of the cellular prion protein (PrPC) into the pathological scrapie isoform (PrPSc) in the brain. Both the in vivo …             Membrane Driven Spatial Organization of GPCRs ▶     Sayan Mondal, Jennifer M. Johnston, Hao Wang et al.     Spatial organization of G-protein coupled receptors (GPCRs) into dimers and higher order oligomers has been demonstrated in vitro and in vivo. The pharmacological readout was …             Impact of fatty acids on human UDP-glucuronosyltransferase 1A1 activity and its expression in neonatal hyperbilirubinemia ▶     Ayako Shibuya, Tomoo Itoh, Robert H. Tukey et al.     While breast milk has been known as a cause of neonatal hyperbilirubinemia, the underlying mechanism of breast milk-induced jaundice has not been clarified. Here, the impact of …             A Novel Model of Surgical Injury in Adult Rat Kidney: A “Pouch Model” ▶     Natalia O. Litbarg, Snezana Vujicic, Suman Setty et al.     Regenerative mechanisms after surgical injury have been studied in many organs but not in the kidney. Studying surgical injury may provide new insights into mechanisms of kidney …             Drosophila Kdm4 demethylases in histone H3 lysine 9 demethylation and ecdysteroid signaling ▶     Amy Tsurumi, Pranabanada Dutta, Shian-Jang Yan et al.     The dynamic regulation of chromatin structure by histone post-translational modification is an essential regulatory mechanism that controls global gene transcription. The Kdm4 …             Rescuing Infertility of Pick1 Knockout Mice by Generating Testis-specific Transgenic Mice via Testicular Infection ▶     Xiumao Li, Zhuo Mao, Min Wu et al.     PICK1 (protein interacting with C-kinase 1) is a peripheral membrane protein with high expression in brain, testis, pancreas and other neuroendocrine tissues. Male Pick1 knockout …             VSL3 probiotic modifies mucosal microbial composition but does not reduce colitis-associated colorectal cancer ▶     Janelle C. Arthur, Raad Z. Gharaibeh, Joshua M. Uronis et al.     Although probiotics have shown success in preventing the development of experimental colitis-associated colorectal cancer (CRC), beneficial effects of interventional treatment are …             Tomato yellow leaf curl virus alters the host preferences of its vector Bemisia tabaci ▶     Yong Fang, Xiaoguo Jiao, Wen Xie et al.     Bemisia tabaci, the whitefly vector of Tomato yellow leaf curl virus (TYLCV), seriously reduces tomato production and quality. Here, we report the first evidence that infection by …             Identification of QTLs conferring resistance to downy mildew in legacy cultivars of lettuce ▶     Ivan Simko, Amy J. Atallah, Oswaldo E. Ochoa et al.     Many cultivars of lettuce (Lactuca sativa L.), the most popular leafy vegetable, are susceptible to downy mildew disease caused by Bremia lactucae. Cultivars Iceberg and Grand …             Estrogen oversees the maintenance of the female genetic program in terminally differentiated gonochorists ▶     B. Paul-Prasanth, R. K. Bhandari, T. Kobayashi et al.     The sexual plasticity of the gonads is not retained after the completion of sex differentiation in vertebrates, except in some hermaphroditic species. Here, we report that the …             Functional characterization of protein 4.1 homolog in amphioxus: Defining a cryptic spectrin-actin-binding site ▶     Lixia Wang, Yuan Wang, Zhaohe Li et al.     Vertebrate 4.1 proteins have a spectrin-actin-binding (SAB) domain, which is lacking in all the invertebrate 4.1 proteins indentified so far, and it was therefore proposed that …             The alligator gut microbiome and implications for archosaur symbioses ▶     Sarah W. Keenan, Annette Summers Engel, Ruth M. Elsey     Among vertebrate gastrointestinal microbiome studies, complete representation of taxa is limited, particularly among reptiles. Here, we provide evidence for previously …             Macrophages lift off surface-bound bacteria using a filopodium-lamellipodium hook-and-shovel mechanism ▶     Jens Möller, Tessa Lühmann, Mamta Chabria et al.     To clear pathogens from host tissues or biomaterial surfaces, phagocytes have to break the adhesive bacteria-substrate interactions. Here we analysed the mechanobiological process …             Females become infertile as the stored sperm's oxygen radicals increase ▶     Klaus Reinhardt, Anne-Cecile Ribou     Predicting infertility is central to reproductive biology, medicine and evolutionary biology. In-vitro studies suggest that oxidative sperm damage causes infertility. Oxidative …             CAR regulates epithelial cell junction stability through control of E-cadherin trafficking ▶     Penny E. Morton, Alexander Hicks, Theodoros Nastos et al.     CAR (Coxsackie and Adenovirus Receptor) is the primary docking receptor for typeB coxsackie viruses and subgroup C adenoviruses. CAR is a member of the JAM family of adhesion …             Mechanism of amyloid β−protein dimerization determined using single−molecule AFM force spectroscopy ▶     Zhengjian Lv, Robin Roychaudhuri, Margaret M. Condron et al.     Aβ42 and Aβ40 are the two primary alloforms of human amyloid β−protein (Aβ). The two additional C−terminal residues of Aβ42 result in elevated neurotoxicity compared with Aβ40, …             Effect of magnetic dipolar interactions on nanoparticle heating efficiency: Implications for cancer hyperthermia ▶     Luis C. Branquinho, Marcus S. Carrião, Anderson S. Costa et al.     Nanostructured magnetic systems have many applications, including potential use in cancer therapy deriving from their ability to heat in alternating magnetic fields. In this work …             A new class of animal collagen masquerading as an insect silk ▶     Tara D. Sutherland, Yong Y. Peng, Holly E. Trueman et al.     Collagen is ubiquitous throughout the animal kingdom, where it comprises some 28 diverse molecules that form the extracellular matrix within organisms. In the 1960s, an …             A New Protein-Protein Interaction Sensor Based on Tripartite Split-GFP Association ▶     Stéphanie Cabantous, Hau B. Nguyen, Jean-Denis Pedelacq et al.     Monitoring protein-protein interactions in living cells is key to unraveling their roles in numerous cellular processes and various diseases. Previously described split-GFP based …             Infant cortex responds to other humans from shortly after birth ▶     Teresa Farroni, Antonio M. Chiarelli, Sarah Lloyd-Fox et al.     A significant feature of the adult human brain is its ability to selectively process information about conspecifics. Much debate has centred on whether this specialization is …             How Cognitive Plasticity Resolves the Brain's Information Processing Dilemma ▶     Diankun Gong, Weiyi Ma, Keith M. Kendrick et al.     A key unresolved question in cognitive science is whether the brain uses asynchronous or synchronous patterns of information transmission. Using an auditory learning task combined …             Personalized prediction of EGFR mutation-induced drug resistance in lung cancer ▶     Debby D. Wang, Weiqiang Zhou, Hong Yan et al.     EGFR mutation-induced drug resistance has significantly impaired the potency of small molecule tyrosine kinase inhibitors in lung cancer treatment. Computational approaches can …             CD72 regulates the growth of KIT-mutated leukemia cell line Kasumi-1 ▶     Tatsuki R. Kataoka, Atsushi Kumanogoh, Masahiro Hirata et al.     Gain-of-function mutations in KIT, a member of the receptor type tyrosine kinases, are observed in certain neoplasms, including mast cell tumors (MCTs) and acute myelogenous …             Molecular imaging of drug transit through the blood-brain barrier with MALDI mass spectrometry imaging ▶     Xiaohui Liu, Jennifer L. Ide, Isaiah Norton et al.     Drug transit through the blood-brain barrier (BBB) is essential for therapeutic responses in malignant glioma. Conventional methods for assessment of BBB penetrance require …             Microbead-based biomimetic synthetic neighbors enhance survival and function of rat pancreatic β-cells ▶     Wei Li, Samuel Lee, Minglin Ma et al.     Diabetes is caused by the loss or dysfunction of insulin-secreting β-cells in the pancreas. β-cells reduce their mass and lose insulin-producing ability in vitro, likely due to …             Enhancing Cell Nucleus Accumulation and DNA Cleavage Activity of Anti-Cancer Drug via Graphene Quantum Dots ▶     Chong Wang, Congyu Wu, Xuejiao Zhou et al.     Graphene quantum dots (GQDs) maintain the intrinsic layered structural motif of graphene but with smaller lateral size and abundant periphery carboxylic groups, and are more …             Photosystem II antenna phosphorylation-dependent protein diffusion determined by fluorescence correlation spectroscopy ▶     Masakazu Iwai, Chan-Gi Pack, Yoshiko Takenaka et al.     Flexibility of chloroplast thylakoid membrane proteins is essential for plant fitness and survival under fluctuating light environments. Phosphorylation of light-harvesting …             Competitive environments sustain costly altruism with negligible assortment of interactions ▶     C. Patrick Doncaster, Adam Jackson, Richard A. Watson     Competition hinders the evolution of altruism amongst kin when beneficiaries gain at the expense of competing relatives. Altruism is consequently deemed to require stronger kin …             Geometric Control of Cell Migration ▶     Bo Chen, Girish Kumar, Carlos C. Co et al.     Morphological polarization involving changes in cell shape and redistribution of cellular signaling machinery, initiate the migration of mammalian cells. Golgi complex typically …             Characterization of GM events by insert knowledge adapted re-sequencing approaches ▶     Litao Yang, Congmao Wang, Arne Holst-Jensen et al.     Detection methods and data from molecular characterization of genetically modified (GM) events are needed by stakeholders of public risk assessors and regulators. Generally, the …             Distinguishing between genotoxic and non-genotoxic hepatocarcinogens by gene expression profiling and bioinformatic pathway analysis ▶     Seul Ji Lee, Young Na Yum, Sang Cheol Kim et al.     A rapid and sensitive method to determine the characteristics of carcinogens is needed. In this study, we used a microarray-based genomics approach, with a short-term in vivo …             First biological measurements of deep-sea corals from the Red Sea ▶     C. Roder, M. L. Berumen, J. Bouwmeester et al.     It is usually assumed that metabolic constraints restrict deep-sea corals to cold-water habitats, with ‘deep-sea’ and ‘cold-water’ corals often used as synonymous. Here we report …             Amputation and prosthesis implantation shape body and peripersonal space representations ▶     Elisa Canzoneri, Marilena Marzolla, Amedeo Amoresano et al.     Little is known about whether and how multimodal representations of the body (BRs) and of the space around the body (Peripersonal Space, PPS) adapt to amputation and prosthesis …             The paradox of enrichment in phytoplankton by induced competitive interactions ▶     Jerrold M. Tubay, Hiromu Ito, Takashi Uehara et al.     The biodiversity loss of phytoplankton with eutrophication has been reported in many aquatic ecosystems, e.g., water pollution and red tides. This phenomenon seems similar, but …             Anthropogenic noise causes body malformations and delays development in marine larvae ▶     Natacha Aguilar de Soto, Natali Delorme, John Atkins et al.     Understanding the impact of noise on marine fauna at the population level requires knowledge about the vulnerability of different life-stages. Here we provide the first evidence …             Diesel exhaust rapidly degrades floral odours used by honeybees ▶     Robbie D. Girling, Inka Lusebrink, Emily Farthing et al.     Honeybees utilise floral odours when foraging for flowers; we investigated whether diesel exhaust pollution could interrupt these floral odour stimuli. A synthetic blend of eight …             Empirical validation of viral quasispecies assembly algorithms: state-of-the-art and challenges ▶     Mattia C. F. Prosperi, Li Yin, David J. Nolan et al.     Next generation sequencing (NGS) is superseding Sanger technology for analysing intra-host viral populations, in terms of genome length and resolution. We introduce two new …             Three-dimensional Imaging of Crystalline Inclusions Embedded in Intact Maize Stalks ▶     John Badger, Jyotsana Lal, Ross Harder et al.     Mineral inclusions in biomass are attracting increased scrutiny due to their potential impact on processing methods designed to provide renewable feedstocks for the production of …             Loss of SHP-2 activity in CD4+ T cells promotes melanoma progression and metastasis ▶     Tao Zhang, Wenjie Guo, Yang Yang et al.     The Src homology 2 domain-containing tyrosine phosphatase 2 (SHP-2) has been reported to have both tumor-promoting and tumor-suppressing roles in tumorigenesis. However, the role …             Sensitive detection of ozone by a practical resorufin-based spectroscopic probe with extremely low background signal ▶     Yangyang Zhang, Wen Shi, Xiaohua Li et al.     Ozone (O3) has attracted much attention because of its key role in human health and disease, and its detection is of great importance for various biochemical studies as well as …             H+-type and OH−-type biological protonic semiconductors and complementary devices ▶     Yingxin Deng, Erik Josberger, Jungho Jin et al.     Proton conduction is essential in biological systems. Oxidative phosphorylation in mitochondria, proton pumping in bacteriorhodopsin, and uncoupling membrane potentials by the …             Comprehensive identification of mutational cancer driver genes across 12 tumor types ▶     David Tamborero, Abel Gonzalez-Perez, Christian Perez-Llamas et al.     With the ability to fully sequence tumor genomes/exomes, the quest for cancer driver genes can now be undertaken in an unbiased manner. However, obtaining a complete catalog of …             The mutational landscape of phosphorylation signaling in cancer ▶     Jüri Reimand, Omar Wagih, Gary D. Bader     Somatic mutations in cancer genomes include drivers that provide selective advantages to tumor cells and passengers present due to genome instability. Discovery of pan-cancer …             Ancient carbon from a melting glacier gives high 14C age in living pioneer invertebrates ▶     Sigmund Hågvar, Mikael Ohlson     Glaciers are retreating and predatory invertebrates rapidly colonize deglaciated, barren ground. The paradox of establishing predators before plants and herbivores has been …             Exploring TCGA Pan-Cancer Data at the UCSC Cancer Genomics Browser ▶     Melissa S. Cline, Brian Craft, Teresa Swatloski et al.     The UCSC Cancer Genomics Browser (https://genome-cancer.ucsc.edu) offers interactive visualization and exploration of TCGA genomic, phenotypic, and clinical data, as produced by …                 Nature Collections TCGA pan-cancer analysis   Access the Collection and accompanying Podcast, FREE at:  www.nature.com/tcga    Produced with support from Illumina          • Careers & Jobs           naturejobs.com Science jobs of the week       Research Technician     University of Essex            Postdoctoral Scholar     University of California, Irvine            PhD or Postdoc position     TU Dresden            Post Doctoral Position     Institut Pasteur, Paris            Postdoctoral Research Associate     University of Oxford            Post Doctoral Fellow     Instituto Gulbenkian de Ciencia            Postdocotral Scholar     University of Kentucky            PhD studentships     Institute of Cancer Research (ICR)            Postdoctoral Fellow     Stony Brook University            Postdoctoral Research Associate     The University of Manchester          No matter what your career stage, student, postdoc or senior scientist, you will find articles on naturejobs.com to help guide you in your science career. Keep up-to-date with the latest sector trends, vote in our reader poll and sign-up to receive the monthly Naturejobs newsletter.           • Scientific Reportsevents Directory featured events           natureevents directory featured events         Keystone Symposia: Molecular Cell Biology of Macrophages in Human Diseases     9-14 February New Mexico, USA         Natureevents Directory is the premier resource for scientists looking for the latest scientific conferences, courses, meetings and symposia. Featured across Nature Publishing Group journals and centrally at natureevents.com it is an essential reference guide to scientific events worldwide.                 Your email address is in the Scientific Reports: Biology mailing list. You have been sent this Table of Contents Alert because you have opted in to receive it. You can change or discontinue your e-mail alerts at any time, by modifying your preferences on your nature.com account at: www.nature.com/nams/svc/myaccount (You will need to log in to be recognised as a nature.com registrant). For further technical assistance, please contact our registration department For other enquiries, please contact our customer feedback department Nature Publishing Group | 75 Varick Street, 9th floor | New York | NY 10013-1917 | USA Nature Publishing Group's offices: Principal offices: London - New York - Tokyo Worldwide offices: Basingstoke - Boston - Buenos Aires - Delhi - Hong Kong - Madrid - Melbourne - Munich - Paris - San Francisco - Seoul - Washington DC Macmillan Publishers Limited is a company incorporated in England and Wales under company number 785998 and whose registered office is located at Brunel Road, Houndmills, Basingstoke, Hampshire RG21 6XS. © 2013 Nature Publishing Group, a division of Macmillan Publishers Limited. All Rights Reserved.